Week 4 (5-29)

Mass Spectrometric Contributions to the Practice of Phosphorylation Site Mapping through 2003: A Literature Review
-This was a review paper. There was no data in this paper.

A Proteomic Strategy for Gaining Insights into Protein Sumoylation in Yeast
-Has data but did not publish

Double Standards in Quantitative Proteomics: Direct Comparative Assessment of Difference in Gel Electrophoresis and Metabolic Stable Isotope Labeling
-Has data but did not publish
- Is (14NH4)2SO4 an isotope label?
- Is "labeled at 0 °C in the dark for 30 min with 400 pmol of cyanine dye (Cy2, Cy3, and Cy5;" an isotope label?

A Proteomic Microarray Approach for Exploring Ligand-initiated Nuclear Hormone Receptor Pharmacology, Receptor Selectivity, and Heterodimer Functionality
-Has data but did not publish
- Does not mention what peptides were used or any modifications
- Is "fluorophore" a label?

Protein Expression Profiling of the Drosophila Fragile X Mutant Brain Reveals Up-regulation of Monoamine Synthesis
-Has data but did not publish
- Is "600 pmol of Cy2 (6-mix)" a label?

Identification of Dynamic Proteome Changes Upon Ligand Activation of Trk-Receptors Using Two-dimensional Fluorescence Difference Gel Electrophoresis and Mass Spectrometry
-Has data but did not publish
- Also used "C18- ZipTips"

Tyrosine Nitration on p65: A Novel Mechanism to Rapidly Inactivate Nuclear Factor--Has data but did not publish
- Used p65. What is this?


A Genome Wide Screening Approach for Membrane-targeted Proteins
-Has data but did not publish
-This was not a Mass Spec paper

JUNE 2005

Phosphotyrosine Proteomic Study of Interferon
-Has data but did not publish
-Is IMAC a Label? (note to self: this was also used in the Tyrosine Nitration on p65 paper)
- How do I write "methyl esterification", "aspartic and glutamic acids were set as static modifications," "phosphorylation of serine, threonine,
and tyrosine were set as variable modifications"?
-used isotopes but not sure of what it is, if it is not IMAC.